Contacts of the helix formed by residues 183 - 203 (chain B) in PDB entry 1H9T
Residue contacts within the protein are
derived with the CSU software (Sobolev V., Sorokine A.,
Prilusky J., Abola E.E. and Edelman M. (1999) Automated
analysis of interatomic contacts in proteins.
Bioinformatics, 15, 327-332). A
short description of the analytical approach
is given at the end of the page.
Note:
Non-standard 3 letter residue
codes indicate a heterogroup. To identify
and analyse, use LPC software
Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC - hydrophobic-hydrophilic contact (destabilizing contact)
+/- - indicates presence/absence of a specific contacts
* - indicates residues forming contacts by their side chain
(including CA atoms)
Residues in contact with PRO 183 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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181B ALA 2.8 12.0 - - - +
182B ASN* 1.3 81.0 - - + +
184B GLU* 1.3 54.8 + - + +
185B ALA 2.6 16.3 + - - -
186B ARG* 2.7 54.4 + - + +
187B SER* 2.9 12.7 + - - -
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Residues in contact with GLU 184 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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182B ASN* 2.7 25.0 + - + +
183B PRO* 1.3 74.8 - - + +
185B ALA* 1.3 59.4 + - - +
187B SER* 3.8 9.8 - - - -
188B LEU* 3.8 12.0 + - - +
222B ILE* 3.4 44.4 - - + +
226B MET* 6.5 0.2 - - - -
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Residues in contact with ALA 185 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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179B TYR* 3.5 53.1 + - + +
180B PHE* 4.2 6.6 - - - -
182B ASN 2.6 15.5 + - - +
184B GLU* 1.3 77.2 - - - +
186B ARG* 1.3 67.4 + - - +
187B SER 3.0 2.2 + - - -
188B LEU* 3.1 6.4 + - - +
189B ALA* 3.0 19.9 + - - +
222B ILE* 4.2 10.5 - - + -
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Residues in contact with ARG 186 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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136B ASP* 2.6 58.3 + - - +
137B HIS* 5.2 1.7 - - - +
138B ALA 4.6 6.0 - - - +
141B PHE* 3.6 41.2 - - + -
180B PHE* 3.3 20.8 + - + +
181B ALA* 2.9 28.5 + - - +
183B PRO* 2.7 45.6 + - - +
185B ALA* 1.3 71.4 - - - +
187B SER* 1.3 67.4 + - - +
189B ALA* 3.0 4.3 + - - +
190B LEU* 2.9 25.4 + - + +
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Residues in contact with SER 187 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183B PRO 2.9 9.9 + - - -
184B GLU* 3.8 14.4 - - - -
186B ARG* 1.3 73.7 - - - +
188B LEU* 1.3 69.0 + - - +
190B LEU* 2.6 23.8 + - - +
191B GLY* 3.0 11.8 + - - -
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Residues in contact with LEU 188 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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179B TYR* 4.8 0.9 - - - +
184B GLU 3.8 8.6 + - - +
185B ALA 3.1 8.3 + - - +
187B SER* 1.3 80.4 + - - +
189B ALA* 1.3 57.5 + - - +
191B GLY* 3.5 2.6 + - - +
192B PHE* 2.9 31.9 + - + +
215B TYR* 4.0 19.3 - - + -
218B GLU* 3.5 47.1 - - + +
219B SER* 3.7 9.9 - - - +
222B ILE* 3.7 22.9 - - + -
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Residues in contact with ALA 189 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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141B PHE* 3.9 8.7 - - + -
180B PHE* 3.9 20.9 - - + -
185B ALA 3.0 10.7 + - - +
186B ARG 3.2 9.2 - - - +
187B SER 2.8 4.6 + - - -
188B LEU* 1.3 74.3 - - - +
190B LEU* 1.3 56.9 + - - +
192B PHE* 2.9 21.8 - - - +
193B TYR* 2.9 28.3 + - + +
215B TYR* 3.7 24.8 + - - +
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Residues in contact with LEU 190 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131B ALA* 3.9 24.5 - - + +
134B VAL* 5.8 2.2 - - + -
136B ASP* 5.8 3.4 - - - +
141B PHE* 4.0 24.9 - - + -
144B LEU* 5.4 1.3 - - + -
186B ARG* 2.9 19.3 + - + +
187B SER* 2.6 15.5 + - - +
189B ALA* 1.3 66.9 - - - +
191B GLY* 1.3 64.4 + - - +
192B PHE 2.7 6.3 + - - -
193B TYR* 3.1 16.9 + - + +
194B HIS* 2.9 28.7 + - + +
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Residues in contact with GLY 191 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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187B SER 3.0 11.0 + - - -
188B LEU* 3.8 4.0 - - - -
190B LEU* 1.3 76.1 - - - +
192B PHE* 1.3 51.1 + - - +
194B HIS* 3.7 10.7 + - - -
195B LYS* 2.8 34.8 + - - +
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Residues in contact with PHE 192 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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113B ILE* 5.3 4.3 - - + -
149B PHE* 4.5 18.4 - + - -
152B LEU* 6.5 0.2 - - + -
188B LEU* 2.9 17.4 + - + +
189B ALA* 2.9 14.6 - - - +
190B LEU 2.7 0.8 + - - -
191B GLY* 1.3 74.0 - - - +
193B TYR* 1.3 93.7 + + - +
195B LYS* 2.9 20.1 + - + +
196B LEU* 3.1 31.1 + - + +
211B THR* 3.2 36.6 - - + -
212B VAL* 4.8 14.6 - - + -
215B TYR* 3.3 45.1 - + + -
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Residues in contact with TYR 193 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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128B LEU* 3.8 20.3 - - + +
131B ALA* 4.4 13.0 - - + -
141B PHE* 4.6 7.2 - + - -
144B LEU* 4.5 11.6 - - + +
145B ASP* 2.7 41.6 + - - +
148B ILE* 3.5 43.5 - - + -
149B PHE* 4.7 6.5 - + - -
180B PHE* 4.3 0.5 - - - -
189B ALA* 2.9 38.6 + - + +
190B LEU* 3.8 16.4 - - + +
192B PHE* 1.3 96.4 - + - +
194B HIS* 1.3 55.2 + - - +
196B LEU* 2.8 29.4 + - + +
197B SER* 2.9 12.0 + - - -
215B TYR* 5.2 1.1 - - - -
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Residues in contact with HIS 194 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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128B LEU 5.8 0.6 + - - -
131B ALA* 5.9 0.4 - - - +
190B LEU* 2.9 16.6 + - + +
191B GLY* 3.7 9.5 + - - -
193B TYR* 1.3 77.3 - - - +
195B LYS* 1.3 73.5 + - + +
196B LEU 3.1 0.7 + - - -
197B SER* 3.3 23.2 + - - -
198B ALA* 3.6 7.1 + - - +
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Residues in contact with LYS 195 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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191B GLY 2.8 26.7 + - - +
192B PHE* 2.9 12.3 + - - +
194B HIS* 1.3 81.5 + - + +
196B LEU* 1.3 64.9 + - + +
198B ALA* 3.9 7.8 + - - +
199B LEU* 4.0 21.6 + - + +
211B THR* 4.5 26.5 - - + +
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Residues in contact with LEU 196 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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113B ILE* 4.7 20.6 - - + -
117B PHE* 4.4 24.6 - - + -
128B LEU* 4.5 17.3 - - + -
152B LEU* 5.3 3.1 - - + -
192B PHE* 3.1 47.4 + - + +
193B TYR* 2.8 12.1 + - + +
195B LYS* 1.3 70.6 - - + +
197B SER* 1.3 56.3 + - - +
198B ALA 3.0 2.5 - - - -
199B LEU* 2.3 57.4 + - + +
200B CYS 3.4 1.4 + - - -
207B GLN 5.4 0.2 - - - +
208B VAL* 4.9 15.3 - - + -
211B THR* 5.3 7.6 - - + -
212B VAL* 6.0 2.2 - - + -
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Residues in contact with SER 197 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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117B PHE* 6.0 0.4 - - - -
125B GLN* 3.3 29.9 + - - -
128B LEU* 4.0 24.9 + - - +
129B ALA* 5.2 0.5 + - - -
193B TYR 2.9 13.6 + - - -
194B HIS* 3.5 15.7 - - - -
196B LEU* 1.3 72.3 - - - +
198B ALA* 1.3 63.2 + - - +
200B CYS* 2.9 23.0 + - - +
201B SER 3.8 0.3 + - - -
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Residues in contact with ALA 198 (chain B).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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194B HIS* 3.6 8.2 + - + +
195B LYS 4.2 8.5 - - - +
196B LEU 2.7 4.0 + - - -
197B SER* 1.3 77.0 - - - +
199B LEU* 1.3 52.2 + - - +
201B SER* 2.8 31.0 + - - +
202B GLU* 2.8 31.6 + - + +
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Residues in contact with LEU 199 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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117B PHE* 3.7 14.2 - - + -
195B LYS* 4.0 28.4 + - + +
196B LEU* 2.3 43.0 + - + +
198B ALA* 1.3 70.2 - - - +
200B CYS* 1.3 51.7 + - - +
202B GLU* 3.3 13.2 + - + +
203B GLY* 2.6 32.9 + - - -
204B ALA* 3.4 49.4 + - + +
207B GLN* 3.5 26.5 - - + +
208B VAL* 5.2 4.0 - - + -
211B THR* 5.9 2.2 - - - +
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Residues in contact with CYS 200 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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117B PHE* 3.3 20.4 - - + -
121B PRO* 3.4 21.0 - - - +
122B ASP* 5.3 0.2 - - - -
124B ALA* 5.1 2.5 - - + -
125B GLN* 2.9 51.4 - - - +
197B SER* 2.9 7.6 + - - +
199B LEU* 1.3 78.6 - - - +
201B SER* 1.3 62.3 + - - +
203B GLY* 4.0 4.2 + - - -
1231B AU 1.4 37.8 - - - -
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Residues in contact with SER 201 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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125B GLN* 4.0 15.1 + - - -
197B SER 4.4 0.7 + - - -
198B ALA* 2.8 13.4 + - - -
200B CYS* 1.3 81.8 - - - +
202B GLU* 1.3 59.7 + - - +
203B GLY 3.4 1.1 - - - -
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Residues in contact with GLU 202 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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198B ALA* 2.8 32.9 + - - +
199B LEU* 3.1 15.7 + - + +
201B SER* 1.3 83.1 - - - +
203B GLY* 1.3 65.0 + - - +
204B ALA* 2.7 13.3 + - + +
207B GLN* 5.7 2.6 + - - -
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Residues in contact with GLY 203 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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117B PHE* 5.5 4.3 - - - -
199B LEU 2.6 16.0 + - - -
200B CYS 4.0 6.3 + - - -
201B SER 3.4 3.2 - - - -
202B GLU* 1.3 72.1 - - - +
204B ALA* 1.3 57.0 + - - -
205B HIS* 3.5 22.1 + - - -
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A short description of the
analytical approach
The contact analysis used in this page
is based upon the approach
developed in:
Sobolev V., Wade R.C., Vriend G.
and Edelman M. PROTEINS (1996)
25, 120-129.
Contact legitimacy depends on the hydrophobic-hydrophilic
properties of the contacting atoms. In order to
define it, for each inter-atomic contact,
eight atom classes have been introduced:
I Hydrophilic - N and O that can donate and accept hydrogen bonds
(e.g., oxygen of hydroxyl group of Ser. or Thr)
II Acceptor - N or O that can only accept a hydrogen bond
III Donor - N that can only donate a hydrogen bond
IV Hydrophobic - Cl, Br, I and all C atoms that are not in
aromatic rings and do not have a covalent bond to
a N or O atom
V Aromatic - C in aromatic rings irrespective of any other
bonds formed by the atom
VI Neutral - C atoms that have a covalent bond to at least one
atom of class I or two or more atoms from class II
or III; atoms; S, F, P, and metal atoms in all cases
VII Neutral-donor - C atoms that have a covalent bond with only one
atom of class III
VIII Neutral-acceptor - C atoms that have a covalent bond with only
one atom of class II
For each pair of contacts the state of legitimacy
is shown below:
Legend:
+, legitimate
-, illegitimate
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Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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Warning!
Atom classes for heterogroups are automatically
assigned based on the atomic coordinates. However, in
three cases (see below) the automatic assignment
is currently ambiguous. In these
cases, the user is advised to manually analyse
the full list of contacts using
LPC software.
1. Carbon atoms belonging to a 4-, 5- or 6-member ring are
considered "aromatic" (Class V) if the ring is approximately
planar, and "hydrophobic" (Class IV) or "neutral" (Classes
VI, VII, VIII) if the ring is non-planar.
2. The oxygen atom of a carbonyl or hydroxy group is considered
"hydroxy" (Class I) if the CO bond is longer than 1.29 Å, and
"carbonyl" (Class II) if shorter.
3. All nitrogen atoms are considered "hydrophilic" (Class I).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il